Hi In my galaxy instance, whatever jobs i am submitting it goes into queued state. If I restart the server then the previous submitted jobs state changes to running. but the newly submitted jobs again goes to queued state. I am at a loss to understand this behaviour of galaxy and unable to debug it. The job submission uses a customized runner. How is it actually goes into the queued state automatically when all the workers thread are free? Does galaxy_session table is_valid attribute makes jobs state true? Or what all places in tables the queued states are getting stored. I can only see that the jobs table state attribute only stores the state. The server logs points error here: galaxy.jobs ERROR 2011-07-29 11:01:28,098 failure running job 2243 Traceback (most recent call last): File "/home/gwadmin/galaxy-central/lib/galaxy/jobs/__init__.py", line 202, in __monitor_step self.dispatcher.put( JobWrapper( job, self ) ) File "/home/gwadmin/galaxy-central/lib/galaxy/jobs/__init__.py", line 856, in put self.job_runners[runner_name].put( job_wrapper ) File "/home/gwadmin/galaxy-central/lib/galaxy/jobs/runners/gw.py", line 375, in put job_wrapper.change_state( model.Job.states.QUEUED ) File "/home/gwadmin/galaxy-central/lib/galaxy/jobs/__init__.py", line 437, in change_state self.sa_session.flush() Regards Karuna
shashi shekhar wrote:
Hi
In my galaxy instance, whatever jobs i am submitting it goes into queued state. If I restart the server then the previous submitted jobs state changes to running. but the newly submitted jobs again goes to queued state.
I am at a loss to understand this behaviour of galaxy and unable to debug it. The job submission uses a customized runner. How is it actually goes into the queued state automatically when all the workers thread are free? Does galaxy_session table is_valid attribute makes jobs state true? Or what all places in tables the queued states are getting stored. I can only see that the jobs table state attribute only stores the state.
The server logs points error here:
galaxy.jobs ERROR 2011-07-29 11:01:28,098 failure running job 2243 Traceback (most recent call last): File "/home/gwadmin/galaxy-central/lib/galaxy/jobs/__init__.py", line 202, in __monitor_step self.dispatcher.put( JobWrapper( job, self ) ) File "/home/gwadmin/galaxy-central/lib/galaxy/jobs/__init__.py", line 856, in put self.job_runners[runner_name].put( job_wrapper ) File "/home/gwadmin/galaxy-central/lib/galaxy/jobs/runners/gw.py", line 375, in put job_wrapper.change_state( model.Job.states.QUEUED ) File "/home/gwadmin/galaxy-central/lib/galaxy/jobs/__init__.py", line 437, in change_state self.sa_session.flush()
Hi Karuna, It looks like this traceback is truncated. If you're still experiencing this problem, could you paste the entire traceback? --nate
Regards Karuna
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participants (2)
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Nate Coraor -
shashi shekhar